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(-) Description

Title :  CRYSTAL STRUCTURE OF N-TERMINAL C1 DOMAIN OF KAIC
 
Authors :  J. Abe, T. B. Hiyama, A. Mukaiyama, S. Son, S. Akiyama
Date :  29 May 14  (Deposition) - 01 Jul 15  (Release) - 05 Aug 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.98
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  Serine/Threonine-Protein Kinase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Abe, T. B. Hiyama, A. Mukaiyama, S. Son, T. Mori, S. Saito, M. Osako, J. Wolanin, E. Yamashita, T. Kondo, S. Akiyama
Circadian Rhythms. Atomic-Scale Origins Of Slowness In The Cyanobacterial Circadian Clock.
Science V. 349 312 2015
PubMed-ID: 26113637  |  Reference-DOI: 10.1126/SCIENCE.1261040

(-) Compounds

Molecule 1 - CIRCADIAN CLOCK PROTEIN KINASE KAIC
    Chains: A, B, C, D, E, F
    EC Number: 2.7.11.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 1-253
    Gene: KAIC, SYNPCC7942_1216, SEE0011
    Mutation: YES
    Organism Scientific: SYNECHOCOCCUS ELONGATUS PCC 7942
    Organism Taxid: 1140
    Strain: PCC 7942

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit : ABCDEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 18)

Asymmetric/Biological Unit (3, 18)
No.NameCountTypeFull Name
1AGS6Ligand/IonPHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
2CL6Ligand/IonCHLORIDE ION
3MG6Ligand/IonMAGNESIUM ION

(-) Sites  (18, 18)

Asymmetric Unit (18, 18)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETHR A:53 , AGS A:303 , HOH A:504 , HOH A:505 , HOH A:506binding site for residue MG A 301
02AC2SOFTWAREARG A:218 , THR A:238 , ILE A:239binding site for residue CL A 302
03AC3SOFTWARESER A:48 , GLY A:49 , THR A:50 , GLY A:51 , LYS A:52 , THR A:53 , LEU A:54 , SER A:89 , PHE A:90 , ARG A:218 , ILE A:239 , THR A:240 , ASP A:241 , MG A:301 , HOH A:417 , HOH A:445 , HOH A:459 , HOH A:504 , HOH A:505 , HOH A:506 , HOH A:518 , PHE B:199 , LYS B:224 , LEU B:225 , ARG B:226 , THR B:228 , SER B:229 , HIS B:230 , HOH B:456binding site for residue AGS A 303
04AC4SOFTWARETHR B:53 , AGS B:303 , HOH B:556 , HOH B:557 , HOH B:558binding site for residue MG B 301
05AC5SOFTWAREARG B:218 , THR B:238 , ILE B:239 , HOH B:537 , HOH C:431binding site for residue CL B 302
06AC6SOFTWARESER B:48 , GLY B:49 , THR B:50 , GLY B:51 , LYS B:52 , THR B:53 , LEU B:54 , SER B:89 , PHE B:90 , ARG B:218 , ILE B:239 , THR B:240 , ASP B:241 , MG B:301 , HOH B:416 , HOH B:438 , HOH B:473 , HOH B:474 , HOH B:526 , HOH B:556 , HOH B:557 , HOH B:558 , PHE C:199 , LYS C:224 , LEU C:225 , ARG C:226 , THR C:228 , SER C:229 , HIS C:230 , HOH C:431binding site for residue AGS B 303
07AC7SOFTWARETHR C:53 , AGS C:303 , HOH C:539 , HOH C:540 , HOH C:541binding site for residue MG C 301
08AC8SOFTWAREARG C:218 , THR C:238 , ILE C:239binding site for residue CL C 302
09AC9SOFTWARESER C:48 , GLY C:49 , THR C:50 , GLY C:51 , LYS C:52 , THR C:53 , LEU C:54 , SER C:89 , PHE C:90 , ARG C:218 , ILE C:239 , THR C:240 , ASP C:241 , MG C:301 , HOH C:419 , HOH C:427 , HOH C:460 , HOH C:485 , HOH C:506 , HOH C:517 , HOH C:539 , HOH C:540 , HOH C:541 , PHE D:199 , LYS D:224 , LEU D:225 , ARG D:226 , THR D:228 , SER D:229 , HIS D:230 , LYS D:232binding site for residue AGS C 303
10AD1SOFTWARETHR D:53 , AGS D:303 , HOH D:545 , HOH D:546 , HOH D:547binding site for residue MG D 301
11AD2SOFTWAREARG D:218 , THR D:238 , ILE D:239 , HOH D:536binding site for residue CL D 302
12AD3SOFTWARESER D:48 , GLY D:49 , THR D:50 , GLY D:51 , LYS D:52 , THR D:53 , LEU D:54 , SER D:89 , PHE D:90 , ARG D:218 , ILE D:239 , THR D:240 , ASP D:241 , MG D:301 , HOH D:447 , HOH D:450 , HOH D:475 , HOH D:511 , HOH D:545 , HOH D:546 , HOH D:547 , HOH D:567 , PHE E:199 , LYS E:224 , LEU E:225 , ARG E:226 , THR E:228 , SER E:229 , HIS E:230 , HOH E:469binding site for residue AGS D 303
13AD4SOFTWARETHR E:53 , AGS E:303 , HOH E:531 , HOH E:532 , HOH E:533binding site for residue MG E 301
14AD5SOFTWAREARG E:218 , THR E:238 , ILE E:239 , HOH E:562binding site for residue CL E 302
15AD6SOFTWARESER E:48 , GLY E:49 , THR E:50 , GLY E:51 , LYS E:52 , THR E:53 , LEU E:54 , SER E:89 , PHE E:90 , ARG E:218 , ILE E:239 , THR E:240 , ASP E:241 , MG E:301 , HOH E:436 , HOH E:468 , HOH E:470 , HOH E:531 , HOH E:532 , HOH E:533 , HOH E:552 , PHE F:199 , LYS F:224 , LEU F:225 , ARG F:226 , THR F:228 , SER F:229 , HIS F:230 , LYS F:232 , HOH F:480 , HOH F:502binding site for residue AGS E 303
16AD7SOFTWAREPHE A:199 , LYS A:224 , LEU A:225 , ARG A:226 , GLY A:227 , THR A:228 , HIS A:230 , LYS A:232 , SER F:48 , GLY F:49 , THR F:50 , GLY F:51 , LYS F:52 , THR F:53 , LEU F:54 , SER F:89 , PHE F:90 , ARG F:218 , ILE F:239 , ASP F:241 , MG F:302 , HOH F:443 , HOH F:444 , HOH F:447 , HOH F:532 , HOH F:540 , HOH F:541binding site for residue AGS F 301
17AD8SOFTWARETHR F:53 , AGS F:301 , HOH F:447 , HOH F:532 , HOH F:540binding site for residue MG F 302
18AD9SOFTWAREARG F:218 , THR F:238 , ILE F:239binding site for residue CL F 303

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4TLB)

(-) Cis Peptide Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1Asp A:145 -Pro A:146
2Asp B:145 -Pro B:146
3Asp C:145 -Pro C:146
4Asp D:145 -Pro D:146
5Asp E:145 -Pro E:146
6Asp F:145 -Pro F:146

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4TLB)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4TLB)

(-) Exons   (0, 0)

(no "Exon" information available for 4TLB)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:224
                                                                                                                                                                                                                                                                
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....ee.....hhhhhh...ee...eeeeee....hhhhhhhhhhhhhhhhhh..eeeee...hhhhhhhhhhhhh.hhhhhhhh..eeeee......hhhhhhhhhhhhhhhhh..eeeeehhhhhh..hhhhhhhhhhhhhhhhhhh.eeeeeee............hhhhhh.eeeeeeeeee..eeeeeeeeeee........eeeeeee..eeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4tlb A  15 HQAIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKLVDEGKLFILDASPDPFDLSALIERINYAIQKYRARRVSIDPVTSVFQASSVVRRELFRLVARLKQIGATTVMTTERIEEYGPIARYGVEEFVSDNVVILRNVLEGERRRRTLEILKLRGTSHMKGEYPFTITDHGINIFPL 249
                                    24        34        44        54        64        74        84        94       104       122       132       142       152|      165       175       185       195       205       215       225       235       245    
                                                                                                                           112|                            152|                                                                                             
                                                                                                                            121                             156                                                                                             


Chain B from PDB  Type:PROTEIN  Length:222
                                                                                                                                                                                                                                                              
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....ee.....hhhhhh...ee...eeeeee....hhhhhhhhhhhhhhhhhh..eeeee...hhhhhhhhhhhhh.hhhhhhhh..eeeee....hhhhhhhhhhhhhhhhh..eeeeehhhhhh..hhhhhhhhhhhhhhhhhhh.eeeeeee............hhhhhh.eeeeeeeeee..eeeeeeeeeee........eeeeeee..eeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4tlb B  15 HQAIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKLVDEGKLFILDASPFDLSALIERINYAIQKYRARRVSIDPVTSVFQASSVVRRELFRLVARLKQIGATTVMTTERIEEYGPIARYGVEEFVSDNVVILRNVLEGERRRRTLEILKLRGTSHMKGEYPFTITDHGINIFPL 249
                                    24        34        44        54        64        74        84        94       104     ||124       134       144       157       167       177       187       197       207       217       227       237       247  
                                                                                                                         110|                            152|                                                                                             
                                                                                                                          121                             156                                                                                             


Chain C from PDB  Type:PROTEIN  Length:225
                                                                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....ee.....hhhhhh...ee...eeeeee....hhhhhhhhhhhhhhhhhh..eeeee...hhhhhhhhhhhhh.hhhhhhhh..eeeee.....hhhhhhhhhhhhhhhhh..eeeee.hhhhhh..hhhhhhhhhhhhhhhhhhh.eeeeeee............hhhhhh.eeeeeeeeee..eeeeeeeeeee........eeeeeee..eeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4tlb C  15 HQAIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKLVDEGKLFILDASPDFDLSALIERINYAIQKYRARRVSIDPVTSVFQQASSVVRRELFRLVARLKQIGATTVMTTERIEEYGPIARYGVEEFVSDNVVILRNVLEGERRRRTLEILKLRGTSHMKGEYPFTITDHGINIFPLG 250
                                    24        34        44        54        64        74        84        94       104      |123       133       143       153|      165       175       185       195       205       215       225       235       245     
                                                                                                                          111|                             153|                                                                                              
                                                                                                                           121                              156                                                                                              


Chain D from PDB  Type:PROTEIN  Length:228
                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ........ee.....hhhhhh...ee...eeeeee....hhhhhhhhhhhhhhhhhh..eeeee...hhhhhhhhhhhhh.hhhhhhhh..eeeee......hhhhhhhhhhhhhhhhh..eeeeehhhhhh.hhhhhhhhhhhhhhhhhhhh.eeeeeee............hhhhhh.eeeeeeeeee..eeeeeeeeeee........eeeeeee..eeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4tlb D  12 NSEHQAIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKLVDEGKLFILDASPDPFDLSALIERINYAIQKYRARRVSIDPVTSVFDASSVVRRELFRLVARLKQIGATTVMTTERIEEYGPIARYGVEEFVSDNVVILRNVLEGERRRRTLEILKLRGTSHMKGEYPFTITDHGINIFPLG 250
                                    21        31        41        51        61        71        81        91       101       111||     129       139       149 ||    162       172       182       192       202       212       222       232       242        
                                                                                                                              112|                           151|                                                                                               
                                                                                                                               121                            155                                                                                               


Chain E from PDB  Type:PROTEIN  Length:227
                                                                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....ee.....hhhhhh...ee...eeeeee....hhhhhhhhhhhhhhhhhh..eeeee...hhhhhhhhhhhhh.hhhhhhhh..eeeee........hhhhhhhhhhhhhhhh...eeeeehhhhhhh...hhhhhhhhhhhhhhhhhhh.eeeeeee............hhhhhh.eeeeeeeeee..eeeeeeeeeee........eeeeeee..eeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4tlb E  15 HQAIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKLVDEGKLFILDASPDPEGFDLSALIERINYAIQKYRARRVSIDPVTSVFQQYASSVVRRELFRLVARLKQIGATTVMTTERIEEYGPIARYGVEEFVSDNVVILRNVLEGERRRRTLEILKLRGTSHMKGEYPFTITDHGINIFP 248
                                    24        34        44        54        64        74        84        94       104       114|      130       140       150   ||  161       171       181       191       201       211       221       231       241       
                                                                                                                             114|                              154|                                                                                            
                                                                                                                              121                               156                                                                                            


Chain F from PDB  Type:PROTEIN  Length:220
                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee.....hhhhhh...ee...eeeeee....hhhhhhhhhhhhhhhhhh..eeeee...hhhhhhhhhhhhh.hhhhhhhh..eeeee....hhhhhhhhhhhhhhhhh..eeeeehhhhhh.hhhhhhhhhhhhhhhhhhhh.eeeeeee............hhhhhh.eeeeeeeeee..eeeeeeeeeee........eeeeeee..eeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4tlb F  17 AIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKLVDEGKLFILDASPFDLSALIERINYAIQKYRARRVSIDPVTSVFDASSVVRRELFRLVARLKQIGATTVMTTERIEEYGPIARYGVEEFVSDNVVILRNVLEGERRRRTLEILKLRGTSHMKGEYPFTITDHGINIFPL 249
                                    26        36        46        56        66        76        86        96       106   ||  126       136       146    || 159       169       179       189       199       209       219       229       239       249
                                                                                                                       110|                           151|                                                                                              
                                                                                                                        121                            155
   Legend:   → Mismatch (orange background)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4TLB)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4TLB)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4TLB)

(-) Gene Ontology  (21, 21)

Asymmetric/Biological Unit(hide GO term definitions)

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  KAIC_SYNE7 | Q79PF4
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  2.7.11.1
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        KAIC_SYNE7 | Q79PF4: 1tf7 1u9i 2gbl 3dvl 3jzm 3k09 3k0a 3k0c 3k0e 3k0f 3s1a 4dug 4ijm 4tl6 4tl7 4tl8 4tl9 4tla 4tlc 4tld 4tle 5c5e 5n8y

(-) Related Entries Specified in the PDB File

4tl6 4tl7 4tl8 4tl9 4tla 4tlc 4tld 4tle